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# -*- coding: utf-8 -*-
import time
import unittest
import logging
import functools
from nose.tools import * # flake8: noqa (PEP8 asserts)
import mock
from modularodm import Q
from framework.auth.core import Auth
from website import settings
import website.search.search as search
from website.search import elastic_s... | haoyuchen1992/osf.io | tests/test_elastic.py | Python | apache-2.0 | 32,592 | [
"Brian"
] | 578c3ba2875b28e643fd91067d70a874aa213d664830006dea819b2746363a04 |
__author__ = 'aclapes'
import numpy as np
from os.path import join
from os.path import isfile, exists
from os import makedirs
import cPickle
from sklearn import preprocessing
from sklearn.decomposition import PCA, IncrementalPCA
from yael import ynumpy
import time
import sys
from joblib import delayed, Parallel
import... | aclapes/darwintree | tracklet_representation.py | Python | bsd-3-clause | 29,414 | [
"Gaussian"
] | d705b20c16f125834d31f1262b0da3d9bc94bc67a080d838a50542553172fba3 |
# // Copyright (c) <2014> <Brian Wheatman>
import simulator as sim
import os
Task = sim.Task
TaskCombo = sim.TaskCombo
make_grid = sim.make_grid
# to read the text document define a factory
def read_input(doc):
group = [] # the group of tasks
text = open(doc, 'r') # open the document to read
for i in r... | wheatman/Simulation | inputs.py | Python | mit | 8,025 | [
"Brian"
] | f5b1c49185fa35d8fab6a72beb5a632d4b5b9733cda4d697b8841317befd0dd9 |
"""
SOM-based learning functions for CFProjections.
$Id$
"""
__version__ = "$Revision$"
from math import ceil
import param
from topo.base.arrayutil import L2norm, array_argmax
from topo.base.boundingregion import BoundingBox
from topo.base.cf import CFPLearningFn
from topo.base.patterngenerator import PatternGener... | ioam/svn-history | topo/learningfn/som.py | Python | bsd-3-clause | 5,271 | [
"Gaussian"
] | b1e22bfb693d8720a46c61151d8ba9dc363fe82a6f83004bcf03297771de8146 |
# -*- coding: utf-8 -*-
"""
baserawio
======
Classes
-------
BaseRawIO
abstract class which should be overridden to write a RawIO.
RawIO is a new API in neo that is supposed to acces as fast as possible
raw data. All IO with theses carractéristics should/could be rewritten:
* internally use of memmap (or hdf5)
*... | rgerkin/python-neo | neo/rawio/baserawio.py | Python | bsd-3-clause | 26,300 | [
"NEURON"
] | 24f63f61e8c39274ec91c61d3ea1af2fa6b3a1bd568c0fe3565afd62def6fd48 |
#
# PyOphidia - Python bindings for Ophidia
# Copyright (C) 2015-2021 CMCC Foundation
#
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# ... | OphidiaBigData/PyOphidia | PyOphidia/cube.py | Python | gpl-3.0 | 248,867 | [
"NetCDF"
] | 84e19c1c109103c4d710767317ea1f2805c41d58aa8b32bb245f683e19f2abbf |
##############################################################################
#
# Copyright (c) 2002 Zope Foundation and Contributors.
#
# This software is subject to the provisions of the Zope Public License,
# Version 2.1 (ZPL). A copy of the ZPL should accompany this distribution.
# THIS SOFTWARE IS PROVIDED "AS I... | tempson-py/tempson | tempson/RestrictedPython/RCompile.py | Python | mit | 9,077 | [
"VisIt"
] | b0533dab6db3c6966b7da371d76cdcd6fb966fc46745c30451ec154f3f36de2a |
# vi: ts=8 sts=4 sw=4 et
#
# visit.py: form visitor
#
# This file is part of Draco2. Draco2 is free software and is made available
# under the MIT license. Consult the file "LICENSE" that is distributed
# together with this file for the exact licensing terms.
#
# Draco2 is copyright (c) 1999-2007 by the Draco2 authors.... | geertj/draco2 | draco2/form/visit.py | Python | mit | 776 | [
"VisIt"
] | 343f75cacaf58ffa4e4a668ca19f26c2f5493b147e1db6470910619a3b58831d |
"""
Given a formula in conjunctive normal form (2-CNF), finds a way to assign
True/False values to all variables to satisfy all clauses, or reports there
is no solution.
https://en.wikipedia.org/wiki/2-satisfiability
Format:
- each clause is a pair of literals
- each literal in the form (name, is_neg... | keon/algorithms | algorithms/graph/satisfiability.py | Python | mit | 4,076 | [
"VisIt"
] | 48a63448e6dcd1ef2d0fada769c1c808664db1c5244bdbddffd76b26f00f34cc |
##############################################################################
# MDTraj: A Python Library for Loading, Saving, and Manipulating
# Molecular Dynamics Trajectories.
# Copyright 2012-2014 Stanford University and the Authors
#
# Authors: Peter Eastman, Robert McGibbon
# Contributors: Kyle A. Beaucha... | rmcgibbo/mdtraj | mdtraj/core/topology.py | Python | lgpl-2.1 | 60,641 | [
"MDTraj",
"OpenMM",
"VMD"
] | 85c3fdd1c77e6697daf8b90278ebc2ddf1a5a7c6c56c1ab23cc1b01e62813f54 |
# pysam versioning information
__version__ = "0.8.3"
__samtools_version__ = "1.2"
__htslib_version__ = "1.2.1"
| nlhepler/pysam | pysam/version.py | Python | mit | 114 | [
"pysam"
] | 1498ec4dce49b9eca4bb92dca74eec53ba2df41d40b7d0dd61fb9feb219a5b8a |
from __future__ import (absolute_import, division, print_function)
from mantid.api import (DataProcessorAlgorithm, mtd, AlgorithmFactory,
FileProperty, FileAction,
MultipleFileProperty, WorkspaceProperty,
PropertyMode, Progress)
from mantid.simple... | ScreamingUdder/mantid | Framework/PythonInterface/plugins/algorithms/WorkflowAlgorithms/ConvertMultipleRunsToSingleCrystalMD.py | Python | gpl-3.0 | 9,743 | [
"CRYSTAL"
] | 7bd5dc7f1625f26785db9dacc09710c0ebff4d7457485cc257706fd10a2753e8 |
# DEVELOPMENT - local_settings.py
# - This file should be copied to ~/hydroshare/hydroshare/local_settings.py
# - The iRODS specific contents of this file contain username and password informaiton
# that is used for an xDCIShare proxy user
import redis
import os
from kombu import Queue, Exchange
from kombu.... | RENCI/xDCIShare | hydroshare/local_settings.py | Python | bsd-3-clause | 5,851 | [
"NetCDF"
] | 9b97fdfa5606e81f2c62ee4b7ad257730a574cd42ad5e5b1d574988f9022e465 |
#!/usr/bin/python
# -*- coding: utf-8 -*-
#
# This module is also sponsored by E.T.A.I. (www.etai.fr)
# GNU General Public License v3.0+ (see COPYING or https://www.gnu.org/licenses/gpl-3.0.txt)
from __future__ import absolute_import, division, print_function
__metaclass__ = type
ANSIBLE_METADATA = {'metadata_version... | tumbl3w33d/ansible | lib/ansible/modules/cloud/vmware/vmware_guest.py | Python | gpl-3.0 | 148,470 | [
"VisIt"
] | 3283486b3efbbd088baaeff88c30ea6f38a2c8718a261d8aad6c19f0e9cd8575 |
#!/usr/bin/python
# -*- coding: utf-8 -*-
"""NBody in N^2 complexity
Note that we are unp.sing only Newtonian forces and do not consider relativity
Neither do we consider collisions between stars
Thus some of our stars will accelerate to speeds beyond c
This is done to keep the simulation simple enough for teaching pu... | bh107/benchpress | benchpress/benchmarks/nbody_nice/python_numpy/dep/nbody_nice_old.py | Python | apache-2.0 | 6,857 | [
"Galaxy"
] | 624af20c0d2ca3f2546a52bd54247ad1c1e17aaf41115b230b6455e6b3e4e70c |
# python standard library
import sys
# ensure Python 3.5
assert sys.version_info[0:2] == (3, 5), sys.version_info
import os
import operator
import itertools
import collections
import functools
import glob
import csv
import datetime
import bisect
import sqlite3
import subprocess
import random
import gc
import shutil
imp... | cggh/biipy | test.py | Python | mit | 947 | [
"pysam"
] | 6b17da001d5b327fbca7530945f31ec10030524ec84c9fbde193ea9c394861b0 |
import pdb
import numpy as np
import math
import time
import chainer
import chainer.functions as F
import chainer.links as L
from chainer import cuda
from util import gaussian_logp0
from util import bernoulli_logp
class VAE(chainer.Chain):
def __init__(self, dim_in, dim_hidden, dim_latent, num_layers, num_trans... | ashwindcruz/dgm | planar_mnist/model.py | Python | mit | 6,218 | [
"Gaussian"
] | 9663930065298024fd64b1ffde11737a4e8c0b3a654499f18f727b40208435bc |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
#
# Copyright 1998-2015 by Paweł T. Jochym <pawel.jochym@ifj.edu.pl>
#
# This file is part of Elastic.
# Elastic is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Softwar... | jochym/Elastic | elastic/cli/elastic.py | Python | gpl-3.0 | 5,903 | [
"ABINIT",
"ASE",
"VASP"
] | c48f81aa0a99fb1b4e7c75da32af3a02dee4e1a54db3ae04381076ed6c203606 |
#
# Copyright (C) 2013-2019 The ESPResSo project
#
# This file is part of ESPResSo.
#
# ESPResSo is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later... | psci2195/espresso-ffans | testsuite/python/interactions_bonded.py | Python | gpl-3.0 | 7,258 | [
"ESPResSo"
] | 58fb9a04ebee0fdda09c3ccb4812fb8cddf27ad75c281fbfffc91ff077d00f31 |
from __future__ import print_function, division
from trippy import psf, scamp, bgFinder, pill, psfStarChooser
import numpy as np,scipy as sci,pylab as pyl
from astropy.io import fits
import pickle
import unittest
import os,sys
class tester(unittest.TestCase):
@classmethod
def setUpClass(self):
sel... | fraserw/PyMOP | trippy/tests/test.py | Python | gpl-2.0 | 11,282 | [
"Gaussian"
] | 5d379574c68432b4695685bbaca9a3593b6c91e6fafb2aacfb0d91649ae9e139 |
"""
Maximum likelihood covariance estimator.
"""
# Author: Alexandre Gramfort <alexandre.gramfort@inria.fr>
# Gael Varoquaux <gael.varoquaux@normalesup.org>
# Virgile Fritsch <virgile.fritsch@inria.fr>
#
# License: BSD Style.
# avoid division truncation
from __future__ import division
import warnings... | seckcoder/lang-learn | python/sklearn/sklearn/covariance/empirical_covariance_.py | Python | unlicense | 8,610 | [
"Gaussian"
] | 0031dbcee0d3c68d4b78065c60f7653fa0a5751bdc5c90f2b26a4ba5ce56480e |
# Copyright (c) OpenMMLab. All rights reserved.
import copy
import inspect
import math
import warnings
import cv2
import mmcv
import numpy as np
from numpy import random
from mmdet.core import PolygonMasks, find_inside_bboxes
from mmdet.core.evaluation.bbox_overlaps import bbox_overlaps
from ..builder import PIPELINE... | open-mmlab/mmdetection | mmdet/datasets/pipelines/transforms.py | Python | apache-2.0 | 109,483 | [
"VisIt"
] | cfde4be457f63d3d8bcd47c169cd37e656b1be2c2d89f16dd3249bc1151c1fc5 |
from __future__ import print_function
import os, sys
import unittest
from pathlib import Path
import vtk, qt, ctk, slicer
from slicer.ScriptedLoadableModule import *
import logging
import csv
from slicer.util import VTKObservationMixin
import platform
import time
from RigidAlignmentModule import RigidAlignmentModuleLog... | NIRALUser/SPHARM-PDM | Modules/Scripted/ShapeAnalysisModule/ShapeAnalysisModule.py | Python | apache-2.0 | 91,183 | [
"Gaussian",
"VTK"
] | 9ca29743fe813f32f8816f5007559b64680385a7e081d683621f0d1b3e85554b |
import Galaxy
import MathCalculator
import SqlReader
import XMLDomReader
import math
import os
import string
VEGA_LUMINOSITY=74.4731973982
NGC_4874_RA=194.898787
NGC_4874_DEC=27.959389
HUBBLE_CONSTANT=67.6
def galaxies_print(galaxies):
file=open("data_used.csv","w+")
title="objid,ra,dec,r-band,redshift"
f... | chshibo/CosData_Tools | Pysics_Lab.py | Python | gpl-3.0 | 2,237 | [
"Galaxy"
] | 434d0f22a24f5df98cadeb7ee7804b13b1f1bffd1490d88c0f1888783a147c5d |
import tensorflow as tf # neural network for function approximation
import gym # environment
import numpy as np # matrix operation and math functions
from gym import wrappers
import gym_morph # customized environment for cart-pole
import matplotlib.pyplot as plt
import time
# Hyperparameters
RANDOM_NUMBER_SEED = 2
EN... | GitYiheng/reinforcement_learning_test | test03_monte_carlo/t13_cartpole_mc_lr.py | Python | mit | 5,445 | [
"NEURON"
] | 04c39761c48fc1a9a489e075a34bd25f4d9d83984cfebb05e4dbb073bf84159f |
#!/usr/bin/env python3
"""The influence of windowing of log. sweep signals when using a
Kaiser Window by fixing beta (=2) and fade_out (=0).
fstart = 1 Hz
fstop = 22050 Hz
"""
import sys
sys.path.append('..')
import measurement_chain
import plotting
import calculation
import ir_imitation
import generation... | spatialaudio/sweep | log_sweep_kaiser_window_script1/log_sweep_kaiser_window_script1.py | Python | mit | 2,121 | [
"DIRAC"
] | f0e6360cefe6428ca3ed62112111a3442f8ad72c9d844bb6681f6339e1fb5211 |
# Copyright 2013 Mark Dickinson
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing,... | mdickinson/refcycle | refcycle/i_directed_graph.py | Python | apache-2.0 | 14,060 | [
"VisIt"
] | 116c190ba1a69660400abfde2c2d9eca615a4717f6e8fb157e3ea6115b8f2213 |
"""This file implements the gym environment of minitaur.
"""
import math
import time
import os, inspect
currentdir = os.path.dirname(os.path.abspath(inspect.getfile(inspect.currentframe())))
parentdir = os.path.dirname(os.path.dirname(currentdir))
os.sys.path.insert(0, parentdir)
import gym
from gym import spaces
fr... | nrz/ylikuutio | external/bullet3/examples/pybullet/gym/pybullet_envs/minitaur/envs/minitaur_gym_env.py | Python | agpl-3.0 | 25,350 | [
"Gaussian"
] | 78cb44845ad5400d9b90895f305ec2819593092f5cbc26c0b70b969add03e1ac |
import numpy as np
from numpy.linalg import det
from astropy.table import Table
from astropy import units as u
from astropy.coordinates import SkyCoord, search_around_sky
from tqdm import tqdm, tnrange, tqdm_notebook
from concurrent.futures import ProcessPoolExecutor, as_completed
from sklearn.neighbors import KernelDe... | nudomarinero/mltier1 | mltier1.py | Python | gpl-3.0 | 21,465 | [
"Gaussian"
] | c947d63f30f2f24779296af0d121ddb333a0acc4518964bc761ff661fde024a6 |
# Copyright 2021 The Distla Authors. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable ... | google/distla_core | distla/distla_core/distla_core/chebyshev/test_chebyshev.py | Python | apache-2.0 | 11,028 | [
"DIRAC"
] | 87b8f0139af96d88e504d944a67ebc2c08226ee265b0f1f4b2ad813d4c50b440 |
# $HeadURL$
""" VirtualMachineHandler provides remote access to VirtualMachineDB
The following methods are available in the Service interface:
- insertInstance
- declareInstanceSubmitted
- declareInstanceRunning
- instanceIDHeartBeat
- declareInstanceHalting
- getInstancesByStatus
... | vmendez/VMDIRAC | WorkloadManagementSystem/Service/VirtualMachineManagerHandler.py | Python | gpl-3.0 | 16,993 | [
"DIRAC"
] | 3bd9cb06d97d5f480594153ff9b1671edaea980abed52e2c2f7aae4075d4a924 |
import os
import copy
import math
import functools
import numpy as np
from ddapp import transformUtils
from ddapp.asynctaskqueue import AsyncTaskQueue
from ddapp import objectmodel as om
from ddapp import visualization as vis
from ddapp import robotstate
from ddapp import segmentation
from ddapp import planplayback
f... | rdeits/director | src/python/ddapp/tabledemo.py | Python | bsd-3-clause | 58,028 | [
"VTK"
] | b2d4c0309c15b46b6fccaa7d3a425c635493079166d0d02a8aad763d41cedc36 |
# Copyright (C) 2012,2013,2015,2016
# Max Planck Institute for Polymer Research
# Copyright (C) 2008,2009,2010,2011
# Max-Planck-Institute for Polymer Research & Fraunhofer SCAI
#
# This file is part of ESPResSo++.
#
# ESPResSo++ is free software: you can redistribute it and/or modify
# it under the term... | espressopp/espressopp | src/FixedTripleList.py | Python | gpl-3.0 | 3,576 | [
"ESPResSo"
] | 5f954f76d329829fa3d90c639f2d612ab5774c86fd33c8ee0a29f706216b7e55 |
from fitfunctionbase import FitFunctionBase
from fitparameters import *
from fithandles import *
__all__ = [
'FitFuncGaussian', 'FitFuncPseudoVoigt', 'FitFuncBoltzmann2',
'FitFuncConstant', 'FitFuncLine', 'FitFuncHeaviside',
'FitFuncRectangularWindow'
]
class FitFuncGaussian(FitFunctionBase):
name = 'gaus... | takumak/tuna | src/fitfunctions.py | Python | mit | 8,012 | [
"Gaussian"
] | c0a2f53677df75a27276c402b8ff04c39dff7af001a72b19aa1fd62ae126f228 |
# Copyright 2013-2020 Lawrence Livermore National Security, LLC and other
# Spack Project Developers. See the top-level COPYRIGHT file for details.
#
# SPDX-License-Identifier: (Apache-2.0 OR MIT)
from spack import *
class RRsamtools(RPackage):
"""Binary alignment (BAM), FASTA, variant call (BCF), and tabix file... | iulian787/spack | var/spack/repos/builtin/packages/r-rsamtools/package.py | Python | lgpl-2.1 | 2,411 | [
"Bioconductor"
] | a4b456d40c05e368d10a05f9b133e64ab7e09d83fafb6381330519c5e8729bc7 |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
# Licensed to the Apache Software Foundation (ASF) under one or more
# contributor license agreements. See the NOTICE file distributed with
# this work for additional information regarding copyright ownership.
# The ASF licenses this file to You under the Apache License, ... | bernard357/shellbot | examples/direct.py | Python | apache-2.0 | 8,139 | [
"VisIt"
] | 5ef782bac972f509daba92afe89bbce251af8d4c8849c177f7480e366c314e12 |
# -*- coding: utf-8 -*-
# Copyright 2022 Google LLC
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or... | googleapis/python-dialogflow-cx | tests/unit/gapic/dialogflowcx_v3/test_agents.py | Python | apache-2.0 | 124,793 | [
"Octopus"
] | e88634f5b214d82f4e03e2578743d662d9fdb72efd45ec4b1cb2a59e26b26f20 |
# This file is part of ts_wep.
#
# Developed for the LSST Telescope and Site Systems.
# This product includes software developed by the LSST Project
# (https://www.lsst.org).
# See the COPYRIGHT file at the top-level directory of this distribution
# for details of code ownership.
#
# This program is free software: you ... | lsst-ts/ts_wep | tests/task/test_estimateZernikesBase.py | Python | gpl-3.0 | 13,756 | [
"VisIt"
] | 07663f764a26f57874d3d794688df521768dc08b2a08cb37df7ed8c59e6c11cd |
#!/usr/bin/env python
"""
Utilities for using M2Crypto SSL with DIRAC.
"""
import os
from M2Crypto import SSL, m2
from DIRAC.Core.Security import Locations
from DIRAC.Core.Security.m2crypto.X509Chain import X509Chain
# Default ciphers to use if unspecified
# Cipher line should be as readable as possible, sorry pylin... | petricm/DIRAC | Core/DISET/private/Transports/SSL/M2Utils.py | Python | gpl-3.0 | 6,737 | [
"DIRAC"
] | 565d1ffbad439b773341892c747f48acc76340cee2ba22fb267ca2c6b82358c9 |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
from __future__ import division, unicode_literals
from __future__ import absolute_import, print_function
"""
This module provides classes used to enumerate surface sites
and to find adsorption sites on slabs
"... | johnson1228/pymatgen | pymatgen/analysis/adsorption.py | Python | mit | 30,855 | [
"Jmol",
"pymatgen"
] | 89c045a3128766f9df1d1274d0531aa95f63b1bce04c16da60f28a47ffd459ed |
# (C) 2016, Markus Wildi, wildi.markus@bluewin.ch
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either version 2, or (at your option)
# any later version.
#
# This program is distr... | RTS2/rts2 | scripts/u_point/u_point/httpd_connection.py | Python | lgpl-3.0 | 3,250 | [
"VisIt"
] | 3f8cd8036a6a95e23c965751bb48e89e95951e7d9e2f6d3a5305496c65dd420f |
import scipy as sp
import numpy as np
import pylab as plt
from scipy.integrate import odeint
class HodgkinHuxley():
"""Full Hodgkin-Huxley Model implemented in Python"""
C_m = 1.0
"""membrane capacitance, in uF/cm^2"""
g_Na = 120.0
"""Sodium (Na) maximum conductances, in mS/cm^2"""
g_K =... | openworm/hodgkin_huxley_tutorial | Tutorial/Source/HodgkinHuxley.py | Python | lgpl-3.0 | 4,594 | [
"NEURON"
] | f9b420a9d4e498124cceaf5ad9896166651529cce948547a6e71a8685a2b9f62 |
#!/usr/bin/env python
"""
Remove the given file replica or a list of file replicas from the File Catalog
This script should be used with great care as it may leave dark data in the storage!
Use dirac-dms-remove-replicas instead
"""
import os
from DIRAC import exit as dexit
from DIRAC.Core.Base.Script import Script
fro... | DIRACGrid/DIRAC | src/DIRAC/DataManagementSystem/scripts/dirac_dms_remove_catalog_replicas.py | Python | gpl-3.0 | 2,255 | [
"DIRAC"
] | 5a55a26d19dafaaa9985b512765582656df61e55c97df1cb50b8167462ec52be |
"""
Implementation of Harwell-Boeing read/write.
At the moment not the full Harwell-Boeing format is supported. Supported
features are:
- assembled, non-symmetric, real matrices
- integer for pointer/indices
- exponential format for float values, and int format
"""
# TODO:
# - Add more support (symmetr... | nmayorov/scipy | scipy/io/harwell_boeing/hb.py | Python | bsd-3-clause | 19,254 | [
"exciting"
] | 60c55f2fdefce25a91e54a60a9881e27cac67addaac15fbdb11ed2a426451d86 |
#! /usr/bin/env python
import os
import sys
import argparse
import numpy as np
import settings
from optimize.gradient_optimizer import GradientOptimizer, FindParams
from caffevis.caffevis_helper import check_force_backward_true, read_label_file
LR_POLICY_CHOICES = ('constant', 'progress', 'progress01')
def get_pa... | yosinski/deep-visualization-toolbox | optimize_image.py | Python | mit | 13,238 | [
"NEURON"
] | 3c873e21ad0f2b5c51e74d9868b1c6fd1893f151baff83ddcd982ed47fa54dd5 |
# -*- encoding: utf-8 -*-
# Copyright 2013 Red Hat, Inc.
# All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless re... | stackforge/watcher | watcher/api/controllers/v1/audit.py | Python | apache-2.0 | 27,964 | [
"VisIt"
] | 51896800536228bd0965f4e44f6ce880ae1a1514ee881bd92eaa35eda4d45fb6 |
# Mantid Repository : https://github.com/mantidproject/mantid
#
# Copyright © 2018 ISIS Rutherford Appleton Laboratory UKRI,
# NScD Oak Ridge National Laboratory, European Spallation Source
# & Institut Laue - Langevin
# SPDX - License - Identifier: GPL - 3.0 +
#pylint: disable=no-init
from __future__ impo... | mganeva/mantid | Testing/SystemTests/tests/analysis/ConvertToMDworkflow.py | Python | gpl-3.0 | 4,182 | [
"CRYSTAL"
] | 7d98829dc3b12ae9b1d4e9d6870d45289303ad17f6c1bfa6ea407c9ae0141d00 |
# Contributed by Eric E Monson
import vtk
def main():
colors = vtk.vtkNamedColors()
colors.SetColor('bkg', [0.2, 0.3, 0.7, 1.0])
# create a rendering window and renderer
ren = vtk.vtkRenderer()
renWin = vtk.vtkRenderWindow()
renWin.AddRenderer(ren)
# create a renderwindowinteractor
... | lorensen/VTKExamples | src/Python/Widgets/OrientationMarkerWidget.py | Python | apache-2.0 | 1,724 | [
"VTK"
] | e3206fa4245a7d4df278d5bab6faea8b87d006444ec90dec678e32781408ef9d |
try: paraview.simple
except: from paraview.simple import *
def RequestDataDescription(datadescription):
"Callback to populate the request for current timestep"
if datadescription.GetForceOutput() == True:
for i in range(datadescription.GetNumberOfInputDescriptions()):
datadescription.GetIn... | openmichigan/PSNM | NavierStokes/Programs/NavierStokes3dFortranMPIParaView/node-based/pipeline_images.py | Python | bsd-2-clause | 24,636 | [
"ParaView"
] | f579e542030ed17153c4d277f21e5ea3644a1e41ad69e88c84566b2828e8fbb0 |
#By /u/TachyonNZ
# Van Doorn by /u/net_goblin
#TEXT-COM, V0.1
import random as rd
import time as tm
########################################################################
# constants #
########################################################################... | voidref/textcom | textcom.py | Python | mit | 52,947 | [
"CASINO",
"MOOSE"
] | 257a35e6f93677a283ab2a22958a21464b24408757b1237a72ff4dec792c9205 |
# coding=utf8
#
# Copyright 2013 Dreamlab Onet.pl
#
# This library is free software; you can redistribute it and/or
# modify it under the terms of the GNU Lesser General Public
# License as published by the Free Software Foundation;
# version 3.0.
# This library is distributed in the hope that it will be useful,
# bu... | tikan/rmock | src/rmock/runners/pop3/server.py | Python | lgpl-3.0 | 7,734 | [
"VisIt"
] | 60949d0d553b314a1e781581a8bf802b3f572908baa1bb26044907df6d4a1b0b |
#!/usr/bin/env python
# Copyright (c) 2012 The Chromium Authors. All rights reserved.
# Use of this source code is governed by a BSD-style license that can be
# found in the LICENSE file.
"""Makes sure that all files contain proper licensing information."""
import optparse
import os.path
import subprocess
import sys... | mogoweb/chromium-crosswalk | tools/checklicenses/checklicenses.py | Python | bsd-3-clause | 16,031 | [
"Galaxy"
] | 66fdca772868ce3fd44b74a695fd41bfd916ba6fb3ada2509f0d7123f32e1d7e |
# -*- coding: utf-8 -*-
# This file is part of Shuup.
#
# Copyright (c) 2012-2017, Shoop Commerce Ltd. All rights reserved.
#
# This source code is licensed under the OSL-3.0 license found in the
# LICENSE file in the root directory of this source tree.
import os
import time
import pytest
from django.core.urlresolvers... | suutari-ai/shoop | shuup_tests/browser/admin/test_picotable.py | Python | agpl-3.0 | 6,128 | [
"VisIt"
] | 7561096832ea45d639cf524ffd87a5b70b74fa0dfbde1b0956f56be920b420db |
# encoding: utf-8
"""
DEPRECATED
Instead use netCDF4.num2date.
cf.py - classes around CF compliant files
The cf module is made for reading CF-compliant datasets,
knowing data, its structure, units and conversions
between units afterwards.
Dependencies:
=============
numpy
netcdftime (packaged in netcdf4-python)
""... | kthyng/octant | octant/cf.py | Python | bsd-3-clause | 5,955 | [
"NetCDF"
] | f442d53e77dae938bf18b53c4dab0cd68d280630fe1d87c43135268294c2f7a5 |
#!/usr/bin/env python
# -*- coding: UTF-8 -*-
"""
Syntenic path assembly.
"""
import sys
import logging
from string import maketrans
from itertools import groupby, combinations
from jcvi.formats.blast import BlastSlow, Blast
from jcvi.formats.sizes import Sizes
from jcvi.utils.iter import pairwise
from jcvi.utils.r... | sgordon007/jcvi_062915 | assembly/syntenypath.py | Python | bsd-2-clause | 13,323 | [
"BLAST"
] | 6e370bd51da2d78a720b92277cefd040f91ecae162b07ecc2b554aa5fda5c9f0 |
import common
import string
import os
import re
import test_db_util
import shutil
import logging
import time
import tempfile
import tarfile
import urllib
import galaxy.webapps.tool_shed.util.hgweb_config
import galaxy.model.tool_shed_install as galaxy_model
import galaxy.util
from base.tool_shed_util import repository... | mikel-egana-aranguren/SADI-Galaxy-Docker | galaxy-dist/test/tool_shed/base/twilltestcase.py | Python | gpl-3.0 | 89,289 | [
"Galaxy",
"VisIt"
] | dee101fefc6cedd1a041250c2183f4e5181c09152ef0da26c60de9bf635f5c8b |
"""The SOINN regressor."""
from . import isoinn2
from .kde import density
from .__gaussian_custom import norm_pdf_multivariate
from numpy import array,diag,matrix
import time
from pygraph.classes.graph import graph
from pygraph.algorithms.accessibility import connected_components
import itertools
from copy import deepc... | sbxzy/pygks | pygks/reg_inn.py | Python | bsd-3-clause | 6,646 | [
"NEURON"
] | 4c21dfcdebd25facdc03baca95d067e059f3b1e158183c10959cdb45a4372a5d |
#!/usr/bin/env python
# PyCal - Python web calendar
#
# Copyright (C) 2004 Ray Osborn
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU Lesser General Public License as published by
# the Free Software Foundation; either version 2 of the License, or
# (at your opt... | rayosborn/pycal | scripts/SendRequest.py | Python | lgpl-3.0 | 3,403 | [
"VisIt"
] | 9bffefb64fd37672b4a3b4444dc95de1b8df2461adda409934c8247857162114 |
import os
import sys
import argparse
from itertools import groupby
def fasta_iter(fasta_name):
fh = open(fasta_name)
faiter = (x[1] for x in groupby(fh, lambda line: line[0] == ">"))
for header in faiter:
header = next(header)[1:].strip()
seq = "".join(s.strip() for s in next(faiter))
... | shahnidhi/outlier_in_BLAST_hits | utils/split_merge.py | Python | mit | 2,837 | [
"BLAST"
] | 4e309f471a2b95dc96c379457919d0d867da958b02a851b5c062941a053346ae |
#!/usr/bin/env python
import vtk
from vtk.test import Testing
from vtk.util.misc import vtkGetDataRoot
VTK_DATA_ROOT = vtkGetDataRoot()
# Create renderer stuff
#
ren1 = vtk.vtkRenderer()
renWin = vtk.vtkRenderWindow()
renWin.AddRenderer(ren1)
iren = vtk.vtkRenderWindowInteractor()
iren.SetRenderWindow(renW... | hlzz/dotfiles | graphics/VTK-7.0.0/Rendering/Core/Testing/Python/rotations.py | Python | bsd-3-clause | 2,846 | [
"VTK"
] | a87ae6e5f873063369a69c4fd02d8e25922cce38dced91cb83392852831efe4c |
# -*- coding: utf-8 -*-
"""
***************************************************************************
translate.py
---------------------
Date : August 2012
Copyright : (C) 2012 by Victor Olaya
Email : volayaf at gmail dot com
*****************************... | dwadler/QGIS | python/plugins/processing/algs/gdal/gdaladdo.py | Python | gpl-2.0 | 5,646 | [
"Gaussian"
] | b42c5aa5525064eea650c3c90b1935ebcf859d89212054dcc7eaa121fbdb07e4 |
"""This is a python library, extending [Mininet](http://mininet.org), in order
to support emulation of (complex) IP networks. As such it provides new classes,
such as Routers, auto-configures all properties not set by the user, such as
IP addresses or router configuration files, ..."""
# This module has a hard depende... | oliviertilmans/ipmininet | ipmininet/__init__.py | Python | gpl-2.0 | 892 | [
"VisIt"
] | 62ee95fbaaf50cac8a735367b1122bdd6e48bc65142b055773fcc942fd7859ff |
import expr
from itertools import repeat
from context import Symbol, Scope
from type_objects import List, Dict, Unknown, Function, NoneType, Instance
from util import type_intersection
from evaluate import UnknownValue
def get_token(node):
return node.__class__.__name__
class NullEvaluator(object): # for recur... | clark800/pystarch | backend/function.py | Python | mit | 8,254 | [
"VisIt"
] | b72d1649aea2782080f0403f1ac8ade88c0b1a2d093871b55383faa10fdc1d3d |
#!/usr/bin/env python
##################################################
## DEPENDENCIES
import sys
import os
import os.path
try:
import builtins as builtin
except ImportError:
import __builtin__ as builtin
from os.path import getmtime, exists
import time
import types
from Cheetah.Version import MinCompatib... | pli3/e2-openwbif | plugin/controllers/views/web/timercleanup.py | Python | gpl-2.0 | 5,192 | [
"VisIt"
] | 6a6ac8ef263f4141786c585fda1b1ff5e6de42559dd493ec37cdd793f17e7721 |
# Copyright (c) 2015 Rackspace, Inc.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in wr... | obulpathi/poppy | poppy/transport/validators/root_domain_regexes.py | Python | apache-2.0 | 4,243 | [
"CASINO"
] | 491e3522aeb830961a4f238c88a8b7830355d33a21e565a1ee18312def2cfacb |
import sys
import argparse
import time
import random
import cPickle
import gzip
import copy
import codecs
import operator
import multiprocessing as mp
from nltk.corpus import wordnet as wn
import theano, numpy
from theano import tensor as T
from event_ae import EventAE
from process_data import DataProcessor
argpars... | pdasigi/spade | run_event_ae.py | Python | gpl-2.0 | 15,910 | [
"Gaussian"
] | c7cd548b5597f1e0fd2d0d53f4090f3cdc5739c1ee5d32cb5a5428f30d8dace3 |
# Copyright 2020 Google LLC
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, s... | google/timecast | timecast/series/random.py | Python | apache-2.0 | 1,062 | [
"Gaussian"
] | 2a9cb8a10d79b3444ff7dd4a06f66946b6fe2200813b92225f43e7393e0406e3 |
# coding=utf8
#
# Copyright 2013 Dreamlab Onet.pl
#
# This library is free software; you can redistribute it and/or
# modify it under the terms of the GNU Lesser General Public
# License as published by the Free Software Foundation;
# version 3.0.
# This library is distributed in the hope that it will be useful,
# bu... | tikan/rmock | src/rmock/core/patch.py | Python | lgpl-3.0 | 5,184 | [
"VisIt"
] | a3efccbf671ab25bee56b61015b9ccecf960d9c126783c15086eacc443722015 |
# Built-in
import itertools as itt
# Common
import numpy as np
from scipy.interpolate import BSpline
import matplotlib.pyplot as plt
import matplotlib.lines as mlines
import matplotlib.patches as mpatches
import matplotlib.colors as mplcol
import matplotlib.gridspec as gridspec
from matplotlib.axes._axes import Axes... | Didou09/tofu | tofu/geom/_plot_optics.py | Python | mit | 45,222 | [
"CRYSTAL"
] | 79e5b8162cbea22937797b0d3db9f012295c7374b1a87f401ea2c82a21693c0a |
# $Id$
#
# Copyright (C) 2001-2006 greg Landrum and Rational Discovery LLC
#
# @@ All Rights Reserved @@
# This file is part of the RDKit.
# The contents are covered by the terms of the BSD license
# which is included in the file license.txt, found at the root
# of the RDKit source tree.
#
"""testing code inspi... | rvianello/rdkit | rdkit/Chem/UnitTestOldBugs.py | Python | bsd-3-clause | 3,815 | [
"RDKit"
] | d689a72185421b19449e67cf1547e46bff436733ca5365001078f903513844aa |
# -*- coding: utf-8 -*-
"""Factories for the OSF models, including an abstract ModularOdmFactory.
Example usage: ::
>>> from tests.factories import UserFactory
>>> user1 = UserFactory()
>>> user1.username
fred0@example.com
>>> user2 = UserFactory()
fred1@example.com
Factory boy docs: http://f... | monikagrabowska/osf.io | tests/factories.py | Python | apache-2.0 | 30,109 | [
"Brian"
] | a51379265e771aa1a71e7dae49a933ad31e6cce5ea42f3166469a2ab515af60c |
#!/usr/bin/env python
#pylint: disable=missing-docstring
#################################################################
# DO NOT MODIFY THIS HEADER #
# MOOSE - Multiphysics Object Oriented Simulation Environment #
# #... | Chuban/moose | python/chigger/tests/annotations/image_annotation.py | Python | lgpl-2.1 | 1,225 | [
"MOOSE"
] | e2a80881446f1c46eacf45c95ed982ed6a65451a9a88ae317719ec1308bbafbe |
# Copyright 2015 The TensorFlow Authors. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applica... | Intel-Corporation/tensorflow | tensorflow/python/ops/nn_ops.py | Python | apache-2.0 | 262,706 | [
"Gaussian"
] | 8260d50589767c9ecb2bdd5bc19ed0cd09467cb039dbc97ecda4bbf79c89cc51 |
# coding: utf-8
# Copyright (c) Pymatgen Development Team.
# Distributed under the terms of the MIT License.
from __future__ import division, unicode_literals, print_function
"""
This module implements plotter for DOS and band structure.
"""
__author__ = "Shyue Ping Ong, Geoffroy Hautier"
__copyright__ = "Copyright ... | migueldiascosta/pymatgen | pymatgen/electronic_structure/plotter.py | Python | mit | 42,465 | [
"Gaussian",
"pymatgen"
] | e14d4f46c83e14bd10ea34a01b9810f82df22b1b70e680f0902529f20b0ac082 |
# -*- coding: utf-8 -*-
import numpy as np
import pymoskito as pm
import matplotlib as mpl
import matplotlib.patches
import matplotlib.transforms
from . import settings as st
HKS41K100 = '#0b2a51'
HKS44K100 = '#0059a3'
HKS44K80 = '#346FB2'
HKS36K100 = '#512947'
HKS33K100 = '#811a78'
HKS57K100 = '#007a47'
HKS65K100 ... | cklb/PyMoskito | pymoskito/examples/ballbeam/visualization.py | Python | bsd-3-clause | 5,996 | [
"VTK"
] | 8fad5414703ab088973fc8351b9cf2b42a859f0418eafa0c19b0487772ffb52f |
#!/usr/bin/env python
import os
import re
import sys
import numpy as np
from chrom import *
from ..util import util as u
from ..util.elements import ELEMENTS
#
# NWChem output file
#
class NWChem(Chrom):
'''A class to parse NWChem td logfiles.'''
def __init__(self, outfile):
# Inherit from Chrom
... | dpadula85/ExSPy | stable/QM_parser/parser/nwchem.py | Python | gpl-3.0 | 3,785 | [
"NWChem"
] | 9465e11c391b87af75748e92f26d0bda9687a4616263a7ab0640cc51bb5e406a |
#!/usr/bin/python
# -*- coding: utf-8 -*-
#
# (c) 2015, Brian Coca <bcoca@ansible.com>
#
# This file is part of Ansible
#
# Ansible is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the Licen... | lberruti/ansible-modules-extras | system/svc.py | Python | gpl-3.0 | 9,616 | [
"Brian"
] | 8eb470e115185593ba3b304b5cd7a0c1bb4220def4d6ec549cf46b38c1b294f1 |
# Copyright 2015 The TensorFlow Authors. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applica... | unnikrishnankgs/va | venv/lib/python3.5/site-packages/tensorflow/contrib/keras/python/keras/layers/noise.py | Python | bsd-2-clause | 3,671 | [
"Gaussian"
] | 56614cfc48d79705e850735065b3c8c5b6db2e7aaaa28ca2d19dd8398aeec034 |
class VehicleInfo(object):
def __init__(self):
"""
make_target: option passed to make to create binaries. Usually sitl, and "-debug" may be appended if -D is passed to sim_vehicle.py
default_params_filename: filename of default parameters file. Taken to be relative to autotest dir.
... | peterbarker/ardupilot-1 | Tools/autotest/pysim/vehicleinfo.py | Python | gpl-3.0 | 10,252 | [
"Firefly"
] | 79f23e0aedacda262ae05f6a577d860c3b4c8bd8c49be3593021e3758f10b4bc |
#! /usr/bin/env python
import random,sys
import re
import math
import collections
import numpy as np
import time
import operator
from scipy.io import mmread, mmwrite
from random import randint
from sklearn import cross_validation
from sklearn import linear_model
from sklearn.grid_search import GridSearchCV
from sklearn... | Goodideax/CS249 | predict_ws.py | Python | bsd-3-clause | 14,972 | [
"Gaussian"
] | 1708884fd4355f26d5e4bf3193d42d3ea0b5c7a98011e9d994d3dad42a846373 |
# Copyright 2013-2020 Lawrence Livermore National Security, LLC and other
# Spack Project Developers. See the top-level COPYRIGHT file for details.
#
# SPDX-License-Identifier: (Apache-2.0 OR MIT)
import os
class Ioapi(MakefilePackage):
"""Models-3/EDSS Input/Output Applications Programming Interface."""
ho... | iulian787/spack | var/spack/repos/builtin/packages/ioapi/package.py | Python | lgpl-2.1 | 1,598 | [
"NetCDF"
] | 06ee3e9170cd00c4125fe99a7290a38bbe759c459345809bd866ab8b995babb1 |
# -*- coding: utf-8 -*-
# Authors: Alexandre Gramfort <alexandre.gramfort@inria.fr>
# Mathieu Blondel <mathieu@mblondel.org>
# Robert Layton <robertlayton@gmail.com>
# Andreas Mueller <amueller@ais.uni-bonn.de>
# Philippe Gervais <philippe.gervais@inria.fr>
# Lars Buitinck ... | DonBeo/scikit-learn | sklearn/metrics/pairwise.py | Python | bsd-3-clause | 41,696 | [
"Gaussian"
] | b611389f0d4d3f3e817d161e987c710b3c80df1d10ede4f219c26c95380de0b7 |
#
#
# File to test current configuration of CA1Pyramidal cell project.
#
# To execute this type of file, type '..\..\..\nC.bat -python XXX.py' (Windows)
# or '../../../nC.sh -python XXX.py' (Linux/Mac). Note: you may have to update the
# NC_HOME and NC_MAX_MEMORY variables in nC.bat/nC.sh
#
# Author:... | pgleeson/TestArea | models/LarkumEtAl2009/pythonScripts/RunTestsModelDB.py | Python | gpl-2.0 | 3,310 | [
"NEURON"
] | 0cb5ad6ef7e80713163ea4f74fc7a42c411f2fe72810b0649df050e057d6b624 |
# Copyright (c) 2003-2012 LOGILAB S.A. (Paris, FRANCE).
# Copyright (c) 2009-2010 Arista Networks, Inc.
# http://www.logilab.fr/ -- mailto:contact@logilab.fr
# This program is free software; you can redistribute it and/or modify it under
# the terms of the GNU General Public License as published by the Free Software
# ... | tkaitchuck/nupic | external/common/lib/python2.6/site-packages/pylint/checkers/base.py | Python | gpl-3.0 | 34,609 | [
"VisIt"
] | e6dc6e547d1e02bef1838e9be72177c1da48e67db9b32973aab703eba66594c6 |
import pygad as pg
import matplotlib.pyplot as plt
import matplotlib.gridspec as gridspec
import numpy as np
from scipy import stats
import utils
import glob
import matplotlib.cm as cm
import matplotlib.mlab as mlab
from multiprocessing import Pool
filename = __file__
n, start, end = 50, -6, -1
bins=np.logspace(start... | Migelo/mpa_garching | 1/z_gal_vs_z_halo.py | Python | mit | 3,868 | [
"Galaxy"
] | 3058496d2e5a52c154e2b8e80c61dc3752f38a9baee1bbf00df16072ee9718c8 |
#!/usr/bin/env python
"""
dirac-rss-query-dtcache
Select/Add/Delete a new DownTime entry for a given Site or Service.
Usage:
dirac-rss-query-dtcache [option] <query>
Queries:
[select|add|delete]
Options:
--downtimeID= The ID of the downtime
--element= ... | vmendez/DIRAC | ResourceStatusSystem/scripts/dirac-rss-query-dtcache.py | Python | gpl-3.0 | 12,482 | [
"DIRAC"
] | 19428c2d8f748128e1564e4f08ba2fad2146e89ec73a08b290654eb399744349 |
#!/usr/bin/env python
#
# Copyright 2013 The Chromium Authors. All rights reserved.
# Use of this source code is governed by a BSD-style license that can be
# found in the LICENSE file.
"""Convert Android xml resources to API 14 compatible.
There are two reasons that we cannot just use API 17 attributes,
so we are ge... | Teamxrtc/webrtc-streaming-node | third_party/webrtc/src/chromium/src/build/android/gyp/generate_v14_compatible_resources.py | Python | mit | 12,231 | [
"Galaxy"
] | 3bb4f5ac1b7b12927c56e94f23c8d0f6cd43f7d393a4843bbe9cc0e9720d8040 |
# BREADTH-FIRST-SEARCH
# Visit an initial vertex, and then visit every one of its
# neighbours. Only when every neighbour vertex has been
# visited then move to a neighbour of a neighbour. Each time
# the seach comes to a new vertex it visits all of its
# neighbours before visiting any that are further from the
# st... | melayev/algods | bfs.py | Python | mit | 2,241 | [
"VisIt"
] | e4a6e0b896a2119577596ecdcd21931b202f922ea505295b681a26567e6b9c31 |
#
# Gramps - a GTK+/GNOME based genealogy program
#
# Copyright (C) 2007 Douglas S. Blank
# Copyright (C) 2000-2007 Donald N. Allingham
# Copyright (C) 2008 Raphael Ackerman
# Copyright (C) 2008 Brian G. Matherly
# Copyright (C) 2011 Tim G L Lyons
#
# This program is free software; you can redi... | arunkgupta/gramps | gramps/plugins/import/importcsv.py | Python | gpl-2.0 | 36,989 | [
"Brian"
] | 3b1f9b00e2eb78aa556da125db567e498eeae96ecba9629f2700ae4601c728d2 |
#!/usr/bin/env python
import numpy as np
import scipy.io as io
import nengo
import pyopencl as cl
from nengo_ocl import sim_ocl
from nengo.utils.numpy import rmse, norm
import matplotlib.pyplot as plt
from nengo.utils.logging import logger
class _InputImage(object):
"""Structure of the input image to the mode
... | matallanas/smoothPursuit | code/Nengo/mt_model.py | Python | gpl-3.0 | 2,756 | [
"NEURON"
] | 01bbc63eeb740b9388240ff169eab06ad5a01cbaac33fbe15ccdded62ecec1f1 |
__author__ = "HarshaRani"
__credits__ = ["Upi Lab"]
__license__ = "GPL3"
__version__ = "1.0.0"
__maintainer__ = "HarshaRani"
__email__ = "hrani@ncbs.res.in"
__status__ = "Development"
__updated__ = "Oct 26 2018"
'''
2018
Oct 26: xfer molecules are not put into screen
Se... | BhallaLab/moose | moose-gui/plugins/kkitOrdinateUtil.py | Python | gpl-3.0 | 19,921 | [
"MOOSE"
] | 9a960ffe3e9a77241fbb1bbefdb59c091c5922b3ca7d9551cc93afab0732852f |
# $HeadURL $
''' ResourceManagementHandler
Module that allows users to access the ResourceManagementDB remotely.
'''
from DIRAC import gConfig, S_OK, gLogger
from DIRAC.Core.DISET.RequestHandler import RequestHandler
from DIRAC.ResourceStatusSystem.Ut... | calancha/DIRAC | ResourceStatusSystem/Service/ResourceManagementHandler.py | Python | gpl-3.0 | 7,554 | [
"DIRAC"
] | cf1051d090679ff363c0d21d83b2f43dff20f2b984645158f660de9c8fec2995 |
# Copyright (C) 2012,2013
# Max Planck Institute for Polymer Research
# Copyright (C) 2008,2009,2010,2011
# Max-Planck-Institute for Polymer Research & Fraunhofer SCAI
#
# This file is part of ESPResSo++.
#
# ESPResSo++ is free software: you can redistribute it and/or modify
# it under the terms of t... | BackupTheBerlios/espressopp | src/Version.py | Python | gpl-3.0 | 2,358 | [
"ESPResSo"
] | 199a641dbf7b58bd76f449a4647a743df87de6f3f6402975b2af25bcbe27def0 |
#!/usr/bin/python
# -------------------------- IMPORTS -------------------------- #
import numpy as np
import random as rn
import scipy
import skimage.util
import skimage.transform
# -------------------------- CROP -------------------------- #
#
# image: image to be cropped, scale: scale factor, keep_original_size: k... | nmarceloromero/data_augment | augment.py | Python | mit | 6,909 | [
"Gaussian"
] | 4a9ebf4a30b22de7fa2a8cf70eb8bd54654f46d1463da890f67a26c5726d5d9d |
#!/usr/bin/env python
#
# Copyright 2007 Google Inc.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law o... | JerryXia/fastgoagent | goagent/server/uploader/google/appengine/tools/appcfg.py | Python | mit | 127,429 | [
"VisIt"
] | 2eace6825a1e1d3b52f80da4da18d69dba608ffa222bedb3320d0d48721fb996 |
# This file is part of cclib (http://cclib.github.io), a library for parsing
# and interpreting the results of computational chemistry packages.
#
# Copyright (C) 2015, the cclib development team
#
# The library is free software, distributed under the terms of
# the GNU Lesser General Public version 2.1 or later. You s... | jchodera/cclib | test/parser/testlogfileparser.py | Python | lgpl-2.1 | 3,707 | [
"ADF",
"cclib"
] | 4921b9e564727d262e2e76798a8b9495ce93a455b41b96ef34bc18a00cbca59b |
#!/usr/bin/env python
#pylint: disable=missing-docstring
#################################################################
# DO NOT MODIFY THIS HEADER #
# MOOSE - Multiphysics Object Oriented Simulation Environment #
# #... | liuwenf/moose | python/chigger/tests/line_sample/line_sample.py | Python | lgpl-2.1 | 1,545 | [
"MOOSE"
] | da244cc919943195d92daf87fdb1ee7e431e4b3c8f76e07952f22569018141d9 |
from scipy.ndimage import gaussian_filter
def smooth_data(data, SD) :
"""Smooth data based on gaussian_filter
Parameters
----------
data: numpy array
unsmootheed fMRI data
SD:
the standard deviation for gaussian smoothing
Returns
-------
nparray of same shape as input but smoothed
"""
smoothed... | juanshishido/project-eta | code/utils/smoothing.py | Python | bsd-3-clause | 391 | [
"Gaussian"
] | e407e4afcbdf45385900e5546e074815bf3107089837b0d5489db92760b88951 |
#!/usr/bin/env python
# ----------------------------------------------------------------------------
# Copyright (c) 2013--, scikit-bio development team.
#
# Distributed under the terms of the Modified BSD License.
#
# The full license is in the file COPYING.txt, distributed with this software.
# ---------------------... | JWDebelius/scikit-bio | skbio/alignment/tests/test_alignment.py | Python | bsd-3-clause | 42,179 | [
"scikit-bio"
] | e8ceccfa8cdd56921fc98cf1f35d7ce7b6c32e6990f028a99c5f7a884bf6801e |
# -*- coding: utf-8 -*-
#
# connections.py
#
# This file is part of NEST.
#
# Copyright (C) 2004 The NEST Initiative
#
# NEST is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 2 of the License, or... | flinz/nest-simulator | topology/doc/user_manual_scripts/connections.py | Python | gpl-2.0 | 18,279 | [
"Gaussian"
] | 4d6ca28489343af62993d850eb1bb9a2e702b2ed43836b74247e20aad5105982 |
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